Contacts of the strand formed by residues 205 - 222 (chain B) in PDB entry 1UHG
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with SER 205 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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197B PRO* 3.5 24.1 - - - +
198B PHE 3.7 6.8 + - - -
199B ARG* 3.0 22.7 + - - +
203B GLN 4.2 0.4 + - - -
204B GLU* 1.3 71.2 - - - +
206B LYS* 1.3 59.5 + - - +
207B PRO* 3.6 5.0 - - - +
372D ALA* 2.9 24.6 + - - +
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Residues in contact with LYS 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197B PRO* 4.3 1.1 - - - -
198B PHE* 2.8 37.9 + - - +
200B VAL* 3.9 17.5 - - + -
204B GLU* 3.6 27.0 + - + +
205B SER* 1.3 72.4 - - - +
207B PRO* 1.3 77.6 + - + +
208B VAL* 3.4 15.0 + - + -
384B SER* 4.5 13.0 - - - -
385B PRO* 3.6 24.6 + - - -
85D ASP* 5.6 6.3 + - - +
372D ALA* 4.5 5.2 - - + -
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Residues in contact with PRO 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B ALA* 4.7 14.6 - - + -
196B MET 3.6 10.8 - - - +
197B PRO* 4.4 3.4 - - + -
205B SER 3.6 8.5 - - - +
206B LYS* 1.3 94.3 + - + +
208B VAL* 1.3 62.4 + - - +
372D ALA* 4.0 14.4 - - + -
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Residues in contact with VAL 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B ALA* 3.2 5.3 - - - +
196B MET 2.9 38.6 + - - +
198B PHE* 3.8 20.9 - - + -
206B LYS* 3.6 31.2 - - + +
207B PRO* 1.3 78.9 - - - +
209B GLN* 1.3 66.7 + - - +
210B MET* 3.1 19.4 + - + -
283B PRO* 4.2 13.9 - - + -
284B ARG 5.9 0.4 - - - +
385B PRO* 4.2 20.4 - - + +
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Residues in contact with GLN 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193B THR* 3.8 26.9 + - + +
194B GLN* 4.1 9.0 - - - +
195B ALA* 3.6 23.1 + - - +
208B VAL* 1.3 72.1 - - - +
210B MET* 1.3 58.5 + - - +
283B PRO* 3.5 4.2 - - - +
284B ARG* 3.0 45.8 + - + +
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Residues in contact with MET 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192B ASP 4.0 1.6 - - - +
193B THR* 3.3 5.9 - - - +
194B GLN* 3.0 37.2 + - - +
196B MET* 3.7 38.4 - - + +
197B PRO 4.6 1.3 - - - +
198B PHE* 4.5 2.5 - - + -
208B VAL* 3.1 20.3 + - + +
209B GLN* 1.3 72.1 - - - +
211B MET* 1.3 68.5 + - - +
212B TYR* 4.0 1.2 + - - +
281B TYR* 3.8 15.7 - - + +
282B LEU 3.5 30.7 - - - -
283B PRO* 3.5 6.1 - - + -
359B ARG* 5.7 0.4 - - + -
360B ALA 3.7 17.7 - - - +
361B ASP* 3.7 22.0 - - + -
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Residues in contact with MET 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184B TRP* 4.6 0.2 - - - +
188B PHE* 3.6 31.2 - - + -
193B THR* 3.7 17.0 - - - +
210B MET* 1.3 75.2 - - - +
212B TYR* 1.3 61.8 + - - +
281B TYR* 3.2 6.9 - - - -
282B LEU* 2.8 58.7 + - + +
283B PRO 3.9 12.1 - - - +
284B ARG* 3.6 21.1 - - + -
334B ILE* 4.3 4.5 - - + -
335B ASN* 3.3 44.4 - - - +
336B GLU* 3.3 15.5 - - - -
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Residues in contact with TYR 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188B PHE* 3.6 11.6 - - - +
189B LYS 4.4 1.4 + - - -
192B ASP* 3.7 39.9 + - + +
193B THR* 4.8 0.4 + - - -
210B MET 4.0 1.3 + - - +
211B MET* 1.3 78.0 - - - +
213B GLN* 1.3 73.1 + - - +
214B ILE* 3.4 29.7 - - + +
279B LYS* 3.7 28.7 + - + +
280B VAL 3.2 11.9 - - - -
281B TYR* 3.4 46.0 - + + -
1402B SO4 3.4 25.4 - - - -
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Residues in contact with GLN 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186B LYS* 3.2 34.5 + - - +
187B ALA 3.6 8.6 + - - +
188B PHE* 3.4 43.8 - - + -
189B LYS 5.4 0.2 - - - +
212B TYR* 1.3 85.9 - - - +
214B ILE* 1.3 73.2 + - - +
215B GLY* 4.3 1.4 - - - -
217B PHE* 3.4 32.4 - - + -
278B ILE 3.8 0.3 - - - +
279B LYS* 3.6 1.4 - - - -
280B VAL* 2.8 34.2 + - + -
342B VAL* 5.5 5.7 - - + +
1402B SO4 4.4 5.8 - - - +
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Residues in contact with ILE 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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212B TYR* 3.4 28.3 - - + +
213B GLN* 1.3 79.8 - - - +
215B GLY* 1.3 61.6 + - - +
277B LYS* 4.4 2.2 - - - -
278B ILE 3.3 12.3 - - - +
279B LYS* 3.6 24.0 - - + -
342B VAL* 3.9 22.4 - - - +
350B ASP* 3.9 50.0 - - + +
351B ALA* 4.5 6.3 - - - +
354B VAL* 3.9 21.8 - - + -
1402B SO4 4.9 12.9 + - - +
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Residues in contact with GLY 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186B LYS* 5.0 4.0 - - - -
213B GLN* 4.3 3.6 - - - -
214B ILE* 1.3 75.2 - - - +
216B LEU* 1.3 62.7 + - - -
217B PHE* 3.6 21.5 - - - -
276B ARG 3.4 1.6 - - - +
277B LYS* 3.3 13.0 - - - -
278B ILE 3.0 31.0 + - - +
342B VAL* 5.5 3.4 - - - -
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Residues in contact with LEU 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186B LYS* 2.6 38.4 + - - +
215B GLY* 1.3 71.4 - - - -
217B PHE* 1.3 63.8 + - - +
275B GLU* 4.0 33.0 - - + +
276B ARG* 3.6 31.6 - - - +
277B LYS* 3.5 22.8 - - + +
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Residues in contact with PHE 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186B LYS* 4.0 26.0 - - + -
213B GLN* 3.4 29.8 - - - -
215B GLY* 3.6 28.3 - - - -
216B LEU* 1.3 76.3 - - - +
218B ARG* 1.3 64.0 + - - +
219B VAL* 3.6 5.0 + - - +
230B LEU* 3.7 17.9 - - + -
231B GLU 3.7 9.4 - - - +
232B LEU* 3.4 28.5 - - + -
233B PRO* 4.0 15.9 - - + -
274B GLU 3.6 0.2 - - - +
275B GLU* 4.1 4.7 - - - -
276B ARG* 2.9 30.4 + - - +
278B ILE* 4.2 4.7 - - + +
280B VAL* 3.8 28.3 - - + -
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Residues in contact with ARG 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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217B PHE* 1.3 74.5 - - - +
219B VAL* 1.3 60.7 + - - +
229B ILE 4.2 0.2 - - - +
230B LEU* 3.9 3.1 - - - +
231B GLU* 2.6 73.5 + - + +
268B THR* 4.6 8.9 + - - -
270B SER* 4.2 23.6 + - - +
273B MET* 4.0 39.8 + - + +
274B GLU* 3.4 7.0 - - - +
275B GLU* 3.6 28.3 - - + +
369B LYS* 5.6 3.4 - - - +
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Residues in contact with VAL 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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217B PHE 4.1 2.5 - - - +
218B ARG* 1.3 77.3 - - - +
220B ALA* 1.3 71.2 + - - +
221B SER* 5.5 2.5 - - - -
228B LYS* 5.0 6.7 - - + -
229B ILE 3.3 16.2 - - - +
230B LEU* 4.7 1.8 - - + -
272B VAL 4.1 0.5 - - - +
273B MET* 4.3 3.1 - - - -
274B GLU* 2.9 42.4 + - - +
276B ARG* 3.9 31.0 - - + -
278B ILE* 4.4 17.7 - - + -
356B GLU* 4.4 10.8 - - - +
358B PHE* 4.8 13.9 - - + -
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Residues in contact with ALA 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219B VAL* 1.3 76.5 - - - +
221B SER* 1.3 60.5 + - - +
222B MET* 3.0 21.1 - - + +
228B LYS* 3.3 3.8 - - - +
229B ILE* 2.8 32.7 + - + +
267B TRP 3.9 2.2 - - - +
272B VAL* 3.6 31.6 - - + +
273B MET* 3.8 18.2 - - - -
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Residues in contact with SER 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219B VAL* 5.5 3.4 - - - -
220B ALA* 1.3 74.1 - - - +
222B MET* 1.3 58.7 + - - +
223B ALA* 3.2 9.9 + - - +
227B MET 3.7 3.8 + - - -
228B LYS* 3.5 27.5 - - - +
247B ASP* 5.4 0.5 + - - -
272B VAL* 5.4 1.0 - - - +
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Residues in contact with MET 222 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220B ALA* 3.0 47.8 - - + +
221B SER* 1.3 68.3 - - - +
223B ALA* 1.3 60.3 + - - +
224B SER* 3.2 3.8 - - - +
225B GLU* 3.5 23.8 - - + -
226B LYS 2.9 21.8 + - - -
227B MET* 3.0 48.1 + - + +
229B ILE* 4.0 5.8 - - + -
267B TRP* 3.6 33.7 - - + +
272B VAL* 4.6 10.5 - - + -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il